= !BioRuby Topics =

== Migration of BioRuby web resources ==
 * rubyforge.org
   * gem (already available)
   * using BTS and Feature Requests in rubyforge.org ... Done
   * RDoc is moved to bioruby.rubyforge.org ... Done
   * Unused services should be disabled ... Done
 * open-bio.org
   * mailing list (already available)
   * preparation of MediaWiki by OBF server administrators ... Done
   * moving contents from wiki.bioruby.org to bioruby.open-bio.org/wiki/
   * migration from CVS to SVN
 * bioruby.org
   * moving wiki to bioruby.open-bio.org/Wiki
   * moving RDoc to bioruby.rubyforge.org ... Done
   * moving toppage to Wiki
   * tar.gz should move to ???
   * www.bioruby.org and bioruby.org should point bioruby.open-bio.org/wiki/Main_Page (redirection?)

== Bio::Sequence improvements for round trip ==

=== Output (formatting) ===
   * Bio::Sequence#output(format = ''anything'')
     * ERB templates
       * Bio::Sequence#output(format = :embl)
       * Bio::Sequence#output(format = :genbank)

=== Input (creation of Bio::Sequence object) ===
   * Bio::Sequence#read(str or file?) or Bio::Sequence#input(str or file?)
     * Bio::*#to_biosequence is automatically called?
   * Bio::*#to_biosequence implementation?

=== Easy access to Bio::Sequence inside BioRuby ===
   * Bio::Sequence#embl, Bio::Sequence#gb
     * can access as if it is Bio::EMBL or Bio::GenBank objects
     * delegates to Bio::Sequence objects (or translation/conversion may be needed)
     * Bio::EMBL changed to Bio::Sequence delegation objects?
       * delayed evaluation?

=== Internal structure of Bio::Sequence ===
   * generated from / compatible with XML Schema?